Variant report
Variant | rs6445612 |
---|---|
Chromosome Location | chr3:53929806-53929807 |
allele | C/T |
Outlinks | Ensembl   UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No data |
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(count:2 , 50 per page) page:
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Variant related genes | Relation type |
---|---|
ENSG00000113811 | Chromatin interaction |
rs_ID | r2[population] |
---|---|
rs1020082 | 0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs1134091 | 0.88[EUR][1000 genomes] |
rs12632292 | 0.96[EUR][1000 genomes] |
rs17053568 | 0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs17053590 | 1.00[CEU][hapmap];0.95[MEX][hapmap];0.92[TSI][hapmap];0.90[EUR][1000 genomes] |
rs1982171 | 0.88[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs2241806 | 0.81[ASW][hapmap];1.00[CEU][hapmap];0.90[GIH][hapmap];0.97[TSI][hapmap];0.96[EUR][1000 genomes] |
rs2276840 | 0.84[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2276843 | 0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs2276844 | 0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs2276845 | 0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
rs2289203 | 1.00[CEU][hapmap];0.95[MEX][hapmap];0.90[TSI][hapmap];0.90[EUR][1000 genomes] |
rs2304575 | 0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes] |
rs2304576 | 0.88[ASW][hapmap];1.00[CEU][hapmap];0.90[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes] |
rs2884631 | 0.85[EUR][1000 genomes] |
rs3017 | 0.81[CEU][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs3733075 | 0.84[CEU][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes] |
rs3733079 | 0.94[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes] |
rs3733083 | 0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
rs3821868 | 0.84[EUR][1000 genomes];0.87[ASN][1000 genomes] |
rs3821869 | 0.84[CEU][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs41292476 | 0.89[EUR][1000 genomes] |
rs4141606 | 0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs45511795 | 0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs4687594 | 1.00[CEU][hapmap];0.96[EUR][1000 genomes] |
rs4687753 | 0.84[CEU][hapmap];0.80[CHB][hapmap];0.83[JPT][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs4687756 | 1.00[CEU][hapmap];0.90[EUR][1000 genomes] |
rs4687758 | 1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs4687760 | 0.86[EUR][1000 genomes] |
rs55917919 | 0.91[EUR][1000 genomes] |
rs56743403 | 0.90[EUR][1000 genomes] |
rs57398949 | 0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs62253003 | 0.80[EUR][1000 genomes];0.94[ASN][1000 genomes] |
rs62253004 | 0.80[EUR][1000 genomes];0.94[ASN][1000 genomes] |
rs709324 | 0.85[EUR][1000 genomes] |
rs73078007 | 0.83[EUR][1000 genomes] |
rs9840445 | 1.00[CEU][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs9849951 | 0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs9850063 | 0.96[EUR][1000 genomes] |
rs9860367 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
rs9880056 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs999515 | 0.96[CEU][hapmap];0.82[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv1003621 | chr3:53448934-54425322 | Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 31 gene(s) | inside rSNPs | diseases |
2 | nsv1013783 | chr3:53694418-53934781 | Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 24 gene(s) | inside rSNPs | diseases |
3 | nsv876804 | chr3:53833509-53934171 | Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 24 gene(s) | inside rSNPs | diseases |
4 | nsv1010575 | chr3:53846741-53934781 | Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 22 gene(s) | inside rSNPs | diseases |
5 | nsv1006990 | chr3:53849510-54285212 | Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 23 gene(s) | inside rSNPs | diseases |
6 | nsv1002141 | chr3:53858541-53934781 | Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 19 gene(s) | inside rSNPs | diseases |
7 | nsv1014752 | chr3:53912429-54123246 | Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
8 | nsv1005411 | chr3:53927782-54158638 | Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
SNP | Gene | Cis/trans | Tissue | Source |
---|---|---|---|---|
rs6445612 | ACTR8 | cis | lymphoblastoid | seeQTL |
rs6445612 | SELK | Cis_1M | lymphoblastoid | RTeQTL |
rs6445612 | SFMBT1 | cis | cerebellum | SCAN |
rs6445612 | ACTR8 | cis | Thyroid | GTEx |
rs6445612 | IL17RB | cis | parietal | SCAN |
rs6445612 | ACTR8 | cis | cerebellum | SCAN |
rs6445612 | IL17RB | cis | cerebellum | SCAN |
rs6445612 | ACTR8 | cis | parietal | SCAN |
rs6445612 | PHF7 | cis | cerebellum | SCAN |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr3:53929800-53933600 | Weak transcription | Rectal Mucosa Donor 31 | rectum |